Import Main Dataset
##
## Attaching package: 'dplyr'
## The following objects are masked from 'package:stats':
##
## filter, lag
## The following objects are masked from 'package:base':
##
## intersect, setdiff, setequal, union
Total Bacterial DNA
##
## Attaching package: 'wrangle'
## The following object is masked from 'package:dplyr':
##
## group_by_all
## `summarise()` regrouping output by 'VariableKit' (override with `.groups` argument)
## `summarise()` regrouping output by 'VariableSpikeSet' (override with `.groups` argument)
## VariableSpikeSet VariableKit mean st_dev n_failures n_total
## 1 First COREDNA 6.565413 0.05259444 0 6
## 2 First EZFood 4.277616 1.45768760 0 6
## 3 First Mastitis 6.805970 0.01589447 0 6
## 4 First Pfood 6.076956 0.02287900 0 6
## 5 First PSoilP 5.698609 0.11744216 0 6
## 6 First PviralDNA 6.192312 0.03599713 0 6
## 7 First ZymoDNA 6.346418 0.03366165 0 6
## 8 Second COREDNA 7.490835 0.02140125 0 6
## 9 Second Mastitis 7.668798 0.02543933 0 6
## 10 Second Pfood 6.631503 0.04452933 0 6
## 11 Second PSoilP 6.439095 0.15846125 0 6
## 12 Second PviralDNA 7.121062 0.07745249 0 6
## 13 Second ZymoDNA 6.697743 0.04461625 0 6
## 14 Third COREDNA 6.881582 1.74763906 1 6
## 15 Third EZFood 4.342899 2.30314702 2 6
## 16 Third Mastitis 8.053032 0.06686248 0 6
## 17 Third Pfood 7.418800 0.03041420 0 6
## 18 Third PSoilP 6.795545 0.08899794 0 6
## 19 Third PviralDNA 7.556803 0.10432742 0 6
## 20 Third ZymoDNA 7.282966 0.12384595 0 6
## Warning: Removed 22 rows containing missing values (geom_point).
## Warning: Removed 3 rows containing missing values (geom_point).
## Warning: Removed 3 rows containing missing values (geom_point).
Bacillus wiedmannii Copy Numbers
## `summarise()` regrouping output by 'VariableKit' (override with `.groups` argument)
## `summarise()` regrouping output by 'VariableSpikeSet' (override with `.groups` argument)
## VariableSpikeSet VariableKit mean st_dev n_failures n_total
## 1 First COREDNA 6.126799 0.05946479 0 6
## 2 First EZFood 4.199089 0.99412039 1 6
## 3 First Mastitis 6.541652 0.02719433 0 6
## 4 First Pfood 5.417196 0.92199266 0 6
## 5 First PSoilP 5.311014 0.18316303 0 6
## 6 First PviralDNA 5.518817 0.08786240 0 6
## 7 First ZymoDNA 6.028139 0.03599635 0 6
## 8 Second COREDNA 6.433043 0.09141025 0 6
## 9 Second Mastitis 6.469291 0.01607210 0 6
## 10 Second Pfood 5.662830 0.08101734 0 6
## 11 Second PSoilP 5.317932 0.17244727 0 6
## 12 Second PviralDNA 6.091386 0.08779476 0 6
## 13 Second ZymoDNA 5.641826 0.02664997 0 6
## 14 Third COREDNA 7.019606 0.02640080 0 6
## 15 Third EZFood 4.500444 0.18655080 3 6
## 16 Third Mastitis 7.012577 0.04008723 0 6
## 17 Third Pfood 6.400803 0.03383823 1 6
## 18 Third PSoilP 6.186386 0.12209311 0 6
## 19 Third PviralDNA 6.674293 0.07478131 0 6
## 20 Third ZymoDNA 6.397461 0.09433067 0 6
## Warning: Removed 87 rows containing missing values (geom_point).
## Warning: Removed 5 rows containing missing values (geom_point).
## Warning: Removed 5 rows containing missing values (geom_point).
Listeria monocytogenes Copy Numbers
## `summarise()` regrouping output by 'VariableKit' (override with `.groups` argument)
## `summarise()` regrouping output by 'VariableSpikeSet' (override with `.groups` argument)
## VariableSpikeSet VariableKit mean st_dev n_failures n_total
## 1 First COREDNA 4.996165 0.07118535 0 6
## 2 First EZFood NaN NA 6 6
## 3 First Mastitis 5.920458 0.03284588 0 6
## 4 First Pfood 5.261206 0.05882789 0 6
## 5 First PSoilP 4.589896 0.10368861 1 6
## 6 First PviralDNA NaN NA 6 6
## 7 First ZymoDNA 5.217074 0.10607334 0 6
## 8 Second COREDNA 6.764514 0.06440611 0 6
## 9 Second Mastitis 6.925829 0.05305144 0 6
## 10 Second Pfood 6.209820 0.05854870 0 6
## 11 Second PSoilP 5.652350 0.28801610 2 6
## 12 Second PviralDNA 6.818189 0.10167286 0 6
## 13 Second ZymoDNA 6.299305 0.06699653 0 6
## 14 Third COREDNA 6.868625 0.03112356 0 6
## 15 Third EZFood NaN NA 6 6
## 16 Third Mastitis 6.906907 0.01320150 0 6
## 17 Third Pfood 6.311089 0.02199862 0 6
## 18 Third PSoilP 6.058299 0.11216514 0 6
## 19 Third PviralDNA 6.871705 0.08573938 0 6
## 20 Third ZymoDNA 6.483661 0.19226732 0 6
## Warning: Removed 130 rows containing missing values (geom_point).
## Warning: Removed 21 rows containing missing values (geom_point).
## Warning: Removed 21 rows containing missing values (geom_point).
Mycobacterium smegmatis Copy Numbers
## `summarise()` regrouping output by 'VariableKit' (override with `.groups` argument)
## `summarise()` regrouping output by 'VariableSpikeSet' (override with `.groups` argument)
## VariableSpikeSet VariableKit mean st_dev n_failures n_total
## 1 First COREDNA 6.410321 0.03379999 0 6
## 2 First EZFood 3.387637 0.53911986 2 6
## 3 First Mastitis 6.132651 0.03721685 0 6
## 4 First Pfood 5.835527 0.02840872 0 6
## 5 First PSoilP 4.337075 0.18166318 0 6
## 6 First PviralDNA 5.791533 0.06735908 0 6
## 7 First ZymoDNA 5.517488 0.08926898 0 6
## 8 Second COREDNA 7.101812 0.07093623 0 6
## 9 Second Mastitis 7.079584 0.02215197 0 6
## 10 Second Pfood 6.579458 0.04582864 0 6
## 11 Second PSoilP 6.072664 0.17450050 0 6
## 12 Second PviralDNA 6.680003 0.03305596 0 6
## 13 Second ZymoDNA 6.701950 0.04422551 0 6
## 14 Third COREDNA 6.917894 0.08192923 0 6
## 15 Third EZFood 6.308042 NA 5 6
## 16 Third Mastitis 6.875300 0.03405437 0 6
## 17 Third Pfood 6.465286 0.02810963 0 6
## 18 Third PSoilP 5.904056 0.13596609 0 6
## 19 Third PviralDNA 6.266574 0.08559028 0 6
## 20 Third ZymoDNA 6.695051 0.19000457 0 6
## Warning: Removed 101 rows containing missing values (geom_point).
## Warning: Removed 7 rows containing missing values (geom_point).
## Warning: Removed 7 rows containing missing values (geom_point).
Salmonella sp. Copy Numbers
## `summarise()` regrouping output by 'VariableKit' (override with `.groups` argument)
## `summarise()` regrouping output by 'VariableSpikeSet' (override with `.groups` argument)
## VariableSpikeSet VariableKit mean st_dev n_failures n_total
## 1 First COREDNA 6.021926 0.03689540 0 6
## 2 First EZFood 3.553886 0.92148645 0 6
## 3 First Mastitis 5.055847 0.05638093 0 6
## 4 First Pfood 4.427881 0.02807177 0 6
## 5 First PSoilP 3.313556 0.16097627 0 6
## 6 First PviralDNA 5.637821 0.04113447 0 6
## 7 First ZymoDNA 4.600919 0.09323729 0 6
## 8 Second COREDNA 5.819654 0.08889109 0 6
## 9 Second Mastitis 5.855133 0.01505745 0 6
## 10 Second Pfood 5.161440 0.07302418 0 6
## 11 Second PSoilP 4.265153 0.24970082 0 6
## 12 Second PviralDNA 5.648986 0.06073656 0 6
## 13 Second ZymoDNA 5.412725 0.02695026 0 6
## 14 Third COREDNA 6.381353 0.15232282 0 6
## 15 Third EZFood 5.491051 NA 5 6
## 16 Third Mastitis 6.491253 0.03059223 0 6
## 17 Third Pfood 6.136920 0.04606326 0 6
## 18 Third PSoilP 5.157145 0.08449168 2 6
## 19 Third PviralDNA 6.017032 0.10019394 0 6
## 20 Third ZymoDNA 6.011617 0.20713085 0 6
## Warning: Removed 100 rows containing missing values (geom_point).
## Warning: Removed 7 rows containing missing values (geom_point).
## Warning: Removed 7 rows containing missing values (geom_point).
